. 2010 Feb 12;152(4):2243–2257. doi: 10.1104/pp.109.149195

Table I. Nano LC-ESI-MS/MS analysis of proteins binding to the E-box region.

The name/conserved domains (CD) of depicted proteins are given as determined by National Center for Biotechnology Information BLAST and their e-values. Xcorr, Cross-correlation factor; z, charge.

Protein Identifier		Name/Conserved Domains	Identified Peptides	z	Xcorr
Chlre2.0	Chlre4.0	Name/Conserved Domains	Identified Peptides	z	Xcorr
154362	146567	G-strand telomere-binding protein 1; CDs: 2× RRM; Expect = 1e-19, 3e-14	DMFAEVGGVDR	2	3.18
			QADGAPGAPAER	2	2.93
			RLAVFIDR	2	3.03
			ADVVTGYDGR	2	3.17
158312	129012	High-light-induced nuclease; CDs: staphylococcal nuclease homolog domain; Expect = 8e-21; InterPro: transcription factor TFIIB-related domain	FFCTESEATSAGWR	2	3.96
			GIWAGEFQVPSEWR	2	4.15
164634	137062	Predicted protein; CD: short-chain dehydrogenase/reductase; Expect = 9e-46	GLAAELGPEGIR^a	2	3.29
152972	59969	Predicted protein^b; CD: short-chain dehydrogenase/reductase; Expect = 2e-64	AEGVTAMGLQGDVR	2	4.26
			ELVQSTIPLR	2	2.71
			SAVDSLTR	1	2.08
			SLALEWGEFNVR	2	4.17
			VALVTGGSSGIGFEIAR	2	3.71
			VNGVAPGPIDGTAGMTK	2	3.06
162329	307591	Predicted protein^b; CD: HU_IHF, a member of the DNABII protein family that binds and bends DNA, functioning as architectural factors in many cellular processes, including transcription, site-specific recombination, and higher order nucleoprotein complex assembly; Expect = 2e-23	AFDSLIGGIEDALINGDR	2	2.65
			LVEAIATEVGLTK	2	4.59
			NPSTGAVLQIAASK	2	4.01

The spectra of the peptide were manually evaluated.

The protein was only identified in one of two independent large-scale experiments.